Eric Wu

Research @ GXL, formerly PhD at @Stanford in biomedical AI

[Eric Wu @ericwu93]

Paperclip 📎 gives your agent access to millions of full-text biomedical papers.

Agents like Claude Code, Cursor, and Codex are powerful research environments, not just for coding. But searching for papers often returns missing or incomplete results because these agents only have access to basic web search.

With our release of Sy (https://t.co/hZK8RxcPCi), we showed that giving agents access to a deep index of biomedical papers improves literature search (1.6× more accurate, 2.4× faster, and 3.6× cheaper) over Claude Code alone.

🚀 Today, we're releasing Paperclip as a CLI that can be installed directly in your agent IDE!

👉 To install and try it out, go to https://t.co/tGSkYhbrZx

📖 We also wrote a technical deep-dive into how Paperclip works and why agents take to it really well: https://t.co/5iAJ6zv58r

[GXL @gxl_ai]

Excited to announce re:AGENT a two-day build weekend (8/15–8/16, SF) for people building tools for scientific agents.

Three tracks:
A) Build an AI scientist that can carry out a workflow from start to finish
B) Design a new biological system from the ground up
C) Create a dataset at scale to answer a question you've never been able to read fast enough to settle.

What you leave with is the working thing, not a pitch deck.

Apply by 7/30 at https://t.co/Wo0QrFkZ6J

[corrin @jontycorrin]

https://t.co/GGp4yCV9pB is taking over SF in August for re:AGENT - a hackathon for end-to-end agentic science

brought to you by some of the goats of bio ai

> @AnthropicAI
> @arcinstitute
> @gxl_ai
> @biohub
> @benchflow_ai

you know this one's gonna be good

link below

[James Zou @james_y_zou]

Bio databases/APIs weren't designed for AI agents🧬

So we expanded #Paperclip to transform common molecular databases—UniProt, PDB, ChEMBL—into a unified agent-native virtual filesystem.

Now you can do deep research across 10^6 molecules much more accurately and 10x faster!

All integrated with millions of full-text papers also indexed in Paperclip. Free to use https://t.co/1b8XZR7KuV

[GXL @gxl_ai]

Paperclip is now in your browser.

Today we're releasing Paperclip Chat, an instant, browser-based way to search and analyze millions of full-text papers, clinical trials and regulatory documents with no local setup.

Paperclip contains every feature of the initial CLI, plus:
- Inline citations
- Repo visualization: see your research as a graph: click through each branch, inspect verified claims, full observability into every conclusion
- A workspace where you can upload your own documents

Try it → https://t.co/Ss030Q3nNB
More → https://t.co/KNuCVikpbY
Paperclip original CLI → https://t.co/Mw8Y7foT8G

[James Zou @james_y_zou]

Excited to introduce Paperclip Chat!🖇️

Now you can use #Paperclip directly in your browser for deep literature synthesis for free
⚡️ Each claim is grounded with inline citations
⚡️ Upload your own PDFs. They're automatically integrated into Paperclip's virtual filesystem

[David Ouyang, MD @David_Ouyang]

@anshulkundaje Can’t just tout the papers that are positive and critique the papers that are negative. Same problems are present in the papers they like.

They decline to participate in https://t.co/i06dY1fFsY and similar. Blinded head to head comparison >> benchmarks. @ericwu93 @kevinywu

[James Zou @james_y_zou]

Today, #paperclip is even faster and more reliable.

We introduce Paperclip Repos, a git-like layer on our virtual filesystem that makes literature synthesis reproducible + verifiable.

This enables better grounding and large-scale scientific analysis https://t.co/HjJUqnb2rC

[Gavin Ray @GavinRayDev]

Paperclip is the only "what does scientific literature say about XYZ?" skill I've tried that doesn't suck.

Already had all of Pubmed + {bio,med}rxiv + 150 million OpenAlex abstracts...

This is icing on the cake 😍

[James Zou @james_y_zou]

We added >220K FDA regulatory and >1M clinical trial docs to #paperclip. All natively indexed for agents and free.

Now agents can easily reason over clinical studies w/o web search!

E.g: find all trials that were approved despite missing endpoint https://t.co/30GGqfCQmO

[Eric Wu @ericwu93]

@MaziyarPanahi @james_y_zou @_akhaliq @gxl_ai Thanks! Data is updated depending on the data source (e.g., biorxiv is a monthly release). No quotas currently.

[Eric Wu @ericwu93]

@LH @james_y_zou @gxl_ai Yes! Paperclip creates a Claude Code skill file (if selected) when it is installed. Alternatively, you can use it via MCP. https://t.co/WTOiAJ79BS

[Eric Wu @ericwu93]

@Chain_AlphaX @james_y_zou @gxl_ai Not at the tool call level, but overall agent execution. We observe that default Claude Code websearch + webfetch often has to make many sequential calls to answer a question, whereas paperclip grep + map provides very dramatic speedup by performing parallel pre-indexed searches.

[Eric Wu @ericwu93]

@girishkaitholil @james_y_zou @gxl_ai *Articles with identical titles are deduped, with preference for PMC over preprints.

[Eric Wu @ericwu93]

@girishkaitholil @james_y_zou @gxl_ai Paperclip doesn't perform deduplication by default, meaning both versions will show in the search results. We found in practice, AI agents are quite good at figuring out which versions are more recent/relevant based on the available metadata (date, journal, etc.).

[Wenhao Chai @wenhaocha1]

huge gift to auto research community!

[Eric Wu @ericwu93]

@wenhaocha1 Thanks Wenhao!

[Eric Wu @ericwu93]

@therealRYC @james_y_zou @gxl_ai Hi Robert, Paperclip updates automatically with the latest literature as its made available, depending on the source (e.g., biorxiv makes monthly releases).

[Eric Wu @ericwu93]

Very excited for this update!

[James Zou @james_y_zou]

Big Update🤩: #paperclip now includes full papers from all of arXiv, PubMed Central and 150 million abstracts!🖇️

You can give your LLM all that knowledge in one line—all optimally indexed for AI agents. Much more thorough and ~100x faster than web search, and free.

[James Zou @james_y_zou]

Big Update🤩: #paperclip now includes full papers from all of arXiv, PubMed Central and 150 million abstracts!🖇️

You can give your LLM all that knowledge in one line—all optimally indexed for AI agents. Much more thorough and ~100x faster than web search, and free.

[James Zou @james_y_zou]

#paperclip now has a public repo! You can request features and discuss issues here https://t.co/23Een4hlk3